Sure, the younger version of Prof X, Magneto, Mystique, Beast, Cyclops, Storm, Jean and Wolverine could face off Apocalypse but the older cast (who have fought more villains/events in this movie series) just looks more experienced than the First Class cast/the younger version.

And in Evolution/TAS, the X-Men weren't exactly amateurs and inexperienced, they already fought with a lot of villains/mutants before they fought Apocalypse.